1 Response_reg#1
5-109 aa · 105 aa · 43.6% of protein
Raw token
Response_reg:5:1.04e-28:109:106:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
E5F39_RS05035
Response regulator OmpR family
Clostridioides difficile · GCF_004684515
ClassRRTypeOmpRLength241 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_004684515#E5F39_RS05035Stable P2CS identifier used across views.
GenomeGCF_004684515Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length241 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage182 / 241 aa (75.5%)Merged over positioned domains only.
Domain description1 Response_reg,1 Trans_reg_CSummary string stored in the genes table.
Signal peptideUnavailableNo TMPRED prediction file matched this gene.
Transmembrane helicesUnavailableConfigure [protein_features] tmpred_root_dir to enable this annotation.
Complete domain annotations
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 Trans_reg_C#2
160-236 aa · 77 aa · 32.0% of protein
Raw token
Trans_reg_C:160:2.21e-32:236:77:77- Raw architecture: Response_reg:5:1.04e-28:109:106:111#Trans_reg_C:160:2.21e-32:236:77:77
- Domain description: 1 Response_reg,1 Trans_reg_C
- TM description: N/A
- TMPRED source: No TMPRED file loaded
- TMPRED segments: N/A
- Complete: Yes
Context mapping
Resolved via p2cs_tcs_context.db when a locus tag match exists
Context labelpairedGCF_004684515::NZ_SRKF01000037.1::G00029
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span11483-13615Genomic interval covered by the local TCS group.
Identifiers
Old locus tagE5F39_05035RefSeq proteinWP_021370352.1
Context group ID
GCF_004684515::NZ_SRKF01000037.1::G00029Context members
E5F39_RS05035E5F39_RS05040
Partner locus tags
E5F39_RS05035E5F39_RS05040
Partner old locus tags
E5F39_05035E5F39_05040
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_021370352.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagE5F39_RS05035Primary locus identifier stored in the genes table.
Old locus tagE5F39_05035Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_SRKF01000037.1Sequence record reported by the local genomic context database.
Genomic interval11 483-12 208 nt726 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span11 483-13 615 ntGCF_004684515::NZ_SRKF01000037.1::G00029
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_004684515::NZ_SRKF01000037.1::G00029Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelpairedNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_SRKF01000037.1All displayed genes belong to this local TCS context.
Neighborhood span11 483-13 615 nt2 133 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
11 483 nt13 615 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
E5F39_RS05035GCF_004684515#E5F39_RS05035
RROmpRCurrent focus
11 483-12 208 nt · Forward (+)
E5F39_RS05040GCF_004684515#E5F39_RS05040
HKClassic
12 212-13 615 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000449025#QCG_RS09290Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0863767
Simplified PFAM architecture for RROC_0863767
PFAM domain coverage: 184 / 241 aa (76.3%)
1 aa241 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-111] | Trans_reg_C[160-236]
- Domain count: 2
- Matched identifier: RROC_0863767
- Positioned domains: Response_reg 5-111 ; Response_reg 5-111 ; Trans_reg_C 160-236 ; Trans_reg_C 160-236
Cluster members and taxonomy
Representative gene: GCF_000449025#QCG_RS09290
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_004684515
AssemblyASM468451v1 · Contighaploid
Genome composition4 354 623 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 103 · HK 49 · RR 53CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key